Alternatives and similar repositories for cell2fate

Users that are interested in cell2fate are comparing it to the libraries listed below

• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆68Updated last month
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆73Updated 8 months ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆58Updated last year
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆60Updated 11 months ago
• data2intelligence / CytoSig
  ☆50Updated 7 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆68Updated 2 months ago
• xleizi / easySCF
  ☆40Updated 5 months ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆64Updated 7 months ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆43Updated 10 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 3 weeks ago
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆68Updated 11 months ago
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆77Updated 8 months ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆71Updated 3 months ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆101Updated 8 months ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 2 years ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆77Updated last year
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆110Updated 2 weeks ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆62Updated 3 months ago
• Single-Cell-Genomics-Group-CNAG-CRG / Tumor-Immune-Cell-Atlas
  Code repository for the Tumor Immune Cell Atlas (TICA) project
  ☆61Updated 3 years ago
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆81Updated last month
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated last year
• ShobiStassen / VIA
  trajectory inference
  ☆98Updated 3 months ago
• cellgeni / batchbench
  ☆46Updated 2 years ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆62Updated last year
• morris-lab / Capybara
  Capybara: A computational tool to measure cell identity and fate transitions
  ☆58Updated 2 years ago
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆67Updated 9 months ago
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆49Updated last year
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆84Updated 10 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆106Updated 7 months ago
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆52Updated 2 weeks ago